Refactor similarity engine and implement parallel clustering

Introduces parallel processing for clustering, refines scoring mechanisms, and expands test coverage for the alignment functionality.

This change introduces parallel processing capabilities within the clustering logic, updates the core similarity engine with new data structures and scoring methods, and implements a comprehensive test suite for the alignment tool. It also adds new command-line options for configuring alignment parameters and reference lengths.

pkg/obithermo/testdata/ecoprimers_tm.tsv

@@ -0,0 +1,13 @@
+AAACTGGGATTAGATACC	48.5
+ACACCTCGACCTGACGTT	58.8
+ACTTACCATGTTACGACT	50.8
+CAAACTGGGATTAGATAC	47.5
+CCAAGTGCACCTTCCGGT	60.7
+CCTGTTCTAGAACCGATA	50.8
+CTACACCTCGACCTGACG	57.5
+CTTTTGCCACAGAGACGG	57.0
+GCCAAGTCCTTTGGGTTT	56.2
+GGGATTAGATACCCCACT	52.6
+GTTCTAGAACAGGCTCCT	53.6
+TCGTACCTTTTGCATCAT	52.2
+TTCTAGAACAGGCTCCTC	53.3